Infolab wiki|
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| Describe InfolabClusterComputeHowtoMpi here. | This HOWTO describes how to run an MPI job on the cluster. Wikipedia would call this article a stub. As I have very little experience with running MPI jobs, I am more or less pasting the script from http://csc.cnsi.ucsb.edu/docs/running-jobs-torque. |
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| = The submission script = | |
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Here is an example of a bit more complex script to run an MPI job (copied from http://csc.cnsi.ucsb.edu/docs/running-jobs-torque): {{{ #!/bin/sh |
{{{!#highlight bash #!/bin/bash |
This HOWTO describes how to run an MPI job on the cluster. Wikipedia would call this article a stub. As I have very little experience with running MPI jobs, I am more or less pasting the script from http://csc.cnsi.ucsb.edu/docs/running-jobs-torque.
The submission script
{{{!#highlight bash #!/bin/bash #PBS -l nodes=2:ppn=4
# Make sure that we are in the same subdirectory as where the qsub command # is issued. cd $PBS_O_WORKDIR
# make a list of allocated nodes(cores) cat $PBS_NODEFILE > nodes
# How many cores total do we have? NO_OF_CORES=cat $PBS_NODEFILE | egrep -v '^#'\|'^$' | wc -l | awk '{print $1}' NODE_LIST=cat $PBS_NODEFILE
# Just for kicks, see which nodes we got. echo $NODE_LIST
# Run the executable. *DO NOT PUT* a '&' at the end!! mpirun -np $NO_OF_CORES -machinefile nodes ./pi3 >& log }}}